Population genomics of the wild wheat Aegilops tauschii (Open wild wheat consortium phase II)

Wild wheat relatives of bread wheat represent genetic diversity that can
be used for wheat crop improvement. Here, we establish and analyse genomic
resources for Tausch’s goatgrass, Aegilops tauschii, the donor of the
bread wheat D genome. We determined 493 genetically non-redundant
accessions from a diversity panel of over 900 sequenced accessions. We
generated high-quality assemblies for 46 accessions, including annotated
chromosome-scale assemblies for one accession from each of the three
lineages of Ae. tauschii to serve a reference assemblies to anchor the
genomic resources. This dataset was generated under the aegis of the Open
Wild Wheat Consortium (www.openwildwheat.org). We also resequenced and
analysed 60 wheat landraces and generated a chromosome-scale genome
assembly for one of these to study the genetic composition and history of
the bread wheat D genome. We determined the complexity and origin of the D
genome across 17 hexaploid wheat lines by dividing the wheat genomes into
50-kb windows and assigned each window to an Ae. tauschii subpopulation
based on identity-by-state. This dataset provides: Pseudo-chromosome level
genome assemblies, Hi-C contact maps and genome annotations for the Ae.
tauschii lineage-reference accessions TA10171 (L1), TA1675 (L2) and TA2576
(L3), Contig-level and lineage reference-scaffolded assemblies for 43 Ae.
tauschii accessions sequenced with PacBIO CCS Pseudo-chromosome level
genome assembly, Omni-C contact map and genome annotation
for bread wheat landrace accession CWI 86942, Variant call (SNP)
vcf file for the Ae. tauschii diversity panel. SNP were called against the
TA1675 (L2) reference assembly, Phylogenetic newick tree file for the
non-redundant Ae. tauschii accessions, Structural variants (SV)
vcf files for Ae. tauschii accessions sequenced with PacBIO CCS. SV were
called against the TA1675 (L2) reference assembly, IBSpy variations across
17 hexaploid wheat genomes using Ae. tauschii k-mer sets